This study presents a molecular toolkit for engineering synthetic yeast communities, specifically *Saccharomyces cerevisiae*, to enhance system performance and robustness in biomanufacturing. The toolkit consists of 15 auxotrophic strains and 15 target genes for overproduction of essential metabolites, allowing the creation of co-cultures through exchange of essential metabolites. Using ensemble modelling and experimentation, the researchers explored how cellular and environmental factors govern population dynamics in these systems. They demonstrated that metabolite production rates, initial population ratios, population density, and extracellular supplementation can control co-culture dynamics. The toolkit was applied to increase the production of the high-value antioxidant resveratrol by dividing its metabolic pathways between two strains. The results show that the toolkit can be used to create novel microbial communities and improve bioproduction of high-value compounds, making it a valuable resource for synthetic ecology and biomanufacturing applications.This study presents a molecular toolkit for engineering synthetic yeast communities, specifically *Saccharomyces cerevisiae*, to enhance system performance and robustness in biomanufacturing. The toolkit consists of 15 auxotrophic strains and 15 target genes for overproduction of essential metabolites, allowing the creation of co-cultures through exchange of essential metabolites. Using ensemble modelling and experimentation, the researchers explored how cellular and environmental factors govern population dynamics in these systems. They demonstrated that metabolite production rates, initial population ratios, population density, and extracellular supplementation can control co-culture dynamics. The toolkit was applied to increase the production of the high-value antioxidant resveratrol by dividing its metabolic pathways between two strains. The results show that the toolkit can be used to create novel microbial communities and improve bioproduction of high-value compounds, making it a valuable resource for synthetic ecology and biomanufacturing applications.